Added a new workflow for WebAtlas2.0 portal-specific data generation#153
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Added a new workflow for WebAtlas2.0 portal-specific data generation#153
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added 30 commits
January 21, 2025 10:01
…t webatlas2.0 processing part silently
…files for webatlas2.0
…o the project's assets directory in the portal code - it's not needed there
…prevent the pipeline from outputting certain warnings
… to project_annotations.tsv file(s) - as this mapping is project-specific
…e specified in project_annotations.tsv
… listed continuous entities (er.g. histopath in GBM)
… - so that intenstities are shown correctly in thumbnails on the portal when the range is between 0 and 1
…n be sorted by max intensity first in the UI
… in project_annotations.tsv
added 13 commits
April 3, 2025 12:28
… gene - across a number of cell annotations, configured in project_annotations.tsv
…, on Omer's request
…eed up WebAtlas2.0 portal start up
…order to keep rendering of thumbnails workable
… entities output into rnaseq_expressions.json
Codecov ReportAttention: Patch coverage is
Additional details and impacted files@@ Coverage Diff @@
## main #153 +/- ##
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- Coverage 28.12% 26.35% -1.78%
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Files 16 17 +1
Lines 935 998 +63
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Hits 263 263
- Misses 672 735 +63 ☔ View full report in Codecov by Sentry. 🚀 New features to boost your workflow:
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added 2 commits
June 17, 2025 12:41
…l sections for genes that are not expressed (above the cutoff) in a given section - this could result in the wrong maximum being displayed in the cross-sections legend above the thumbnails
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Added a new workflow for WebAtlas2.0 portal-specific data generation: Generate_webatlas2_data. It is meant to be run after the Full_pipeline workflow has completed, with the same params.yaml file as Full_pipeline.